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<p>Templated classes encapsulating dynamic programming sequence alignment algorithms.  
<a href="#details">More...</a></p>
<div class="textblock"><code>#include &quot;<a class="el" href="MatrixScorer_8hpp_source.html">moltk/MatrixScorer.hpp</a>&quot;</code><br/>
<code>#include &quot;<a class="el" href="dp__params_8hpp_source.html">moltk/dp_params.hpp</a>&quot;</code><br/>
<code>#include &lt;stdexcept&gt;</code><br/>
<code>#include &lt;cassert&gt;</code><br/>
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Include dependency graph for DPTable.hpp:</div>
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This graph shows which files directly or indirectly include this file:</div>
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<p><a href="DPTable_8hpp_source.html">Go to the source code of this file.</a></p>
<table class="memberdecls">
<tr><td colspan="2"><h2><a name="nested-classes"></a>
Classes</h2></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">struct &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1RunningScore.html">moltk::dp::RunningScore&lt; SCORE_TYPE &gt;</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight">Generic accumulated score in a <a class="el" href="structmoltk_1_1dp_1_1DPCell.html" title="Generic node in dynamic programming table.">DPCell</a>.  <a href="structmoltk_1_1dp_1_1RunningScore.html#details">More...</a><br/></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">struct &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1RunningGapScore_3_01SCORE__TYPE_00_01DP__ALIGN__UNGAPPED__SEQUENCES_00_011_01_4.html">moltk::dp::RunningGapScore&lt; SCORE_TYPE, DP_ALIGN_UNGAPPED_SEQUENCES, 1 &gt;</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight">Template specialization for single sequence affine gap running score (E or F in Gusfield recurrence)  <a href="structmoltk_1_1dp_1_1RunningGapScore_3_01SCORE__TYPE_00_01DP__ALIGN__UNGAPPED__SEQUENCES_00_011_01_4.html#details">More...</a><br/></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">struct &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1RunningGapScore_3_01SCORE__TYPE_00_01DP__ALIGN__GAPPED__ALIGNMENTS_00_011_01_4.html">moltk::dp::RunningGapScore&lt; SCORE_TYPE, DP_ALIGN_GAPPED_ALIGNMENTS, 1 &gt;</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight">Template specialization for alignment of alignments affine gap running score (E or F in Gusfield recurrence)  <a href="structmoltk_1_1dp_1_1RunningGapScore_3_01SCORE__TYPE_00_01DP__ALIGN__GAPPED__ALIGNMENTS_00_011_01_4.html#details">More...</a><br/></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">struct &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt;</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight">Generic node in dynamic programming table.  <a href="structmoltk_1_1dp_1_1DPCell.html#details">More...</a><br/></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">struct &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1AlignmentResult.html">moltk::dp::AlignmentResult&lt; SCORE_TYPE &gt;</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight">Gap structure and score of a pairwise sequence alignment, used as an intermediate value during sequence alignment.  <a href="structmoltk_1_1dp_1_1AlignmentResult.html#details">More...</a><br/></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">struct &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="structmoltk_1_1dp_1_1DPTable_3_01SCORE__TYPE_00_01DP__MEMORY__LARGE_00_01ALIGN__TYPE_00_011_01_4.html">moltk::dp::DPTable&lt; SCORE_TYPE, DP_MEMORY_LARGE, ALIGN_TYPE, 1 &gt;</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight">template specialization of DPTable for Affine alignment in large memory.  <a href="structmoltk_1_1dp_1_1DPTable_3_01SCORE__TYPE_00_01DP__MEMORY__LARGE_00_01ALIGN__TYPE_00_011_01_4.html#details">More...</a><br/></td></tr>
<tr><td colspan="2"><h2><a name="namespaces"></a>
Namespaces</h2></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">namespace &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="namespacemoltk.html">moltk</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight"><p>The moltk namespace contains everything in the MolTK C++ API. </p>
<br/></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">namespace &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="namespacemoltk_1_1dp.html">moltk::dp</a></td></tr>
<tr><td class="mdescLeft">&#160;</td><td class="mdescRight"><p>Namespace for dynamic programming classes. </p>
<br/></td></tr>
<tr><td colspan="2"><h2><a name="func-members"></a>
Functions</h2></td></tr>
<tr><td class="memTemplParams" colspan="2">template&lt;typename SCORE_TYPE , DPMemoryModel MEMORY_MODEL, DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </td></tr>
<tr><td class="memTemplItemLeft" align="right" valign="top">std::ostream &amp;&#160;</td><td class="memTemplItemRight" valign="bottom"><a class="el" href="namespacemoltk_1_1dp.html#a77b7e3ce0c9cfe4b90734b8466b1c782">moltk::dp::operator&lt;&lt;</a> (std::ostream &amp;os, const moltk::dp::DPTable&lt; SCORE_TYPE, MEMORY_MODEL, ALIGN_TYPE, GAP_NSEGS &gt; &amp;t)</td></tr>
<tr><td class="memTemplParams" colspan="2">template&lt;typename SCORE_TYPE , DPAlignGapping ALIGN_TYPE, int GAP_NSEGS&gt; </td></tr>
<tr><td class="memTemplItemLeft" align="right" valign="top">std::ostream &amp;&#160;</td><td class="memTemplItemRight" valign="bottom"><a class="el" href="namespacemoltk_1_1dp.html#a33dc6de12eb00df778f3c9694269c3a5">moltk::dp::operator&lt;&lt;</a> (std::ostream &amp;os, const std::vector&lt; std::vector&lt; <a class="el" href="structmoltk_1_1dp_1_1DPCell.html">moltk::dp::DPCell</a>&lt; SCORE_TYPE, ALIGN_TYPE, GAP_NSEGS &gt; &gt; &gt; &amp;)</td></tr>
</table>
<hr/><a name="details" id="details"></a><h2>Detailed Description</h2>
<div class="textblock"><p>Templated classes encapsulating dynamic programming sequence alignment algorithms. </p>
</div></div>
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